Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches

Detalhes bibliográficos
Autor(a) principal: Mir, Daiana
Data de Publicação: 2018
Outros Autores: Gräf, Tiago, Almeida, Sabrina Esteves de Matos, Pinto, Aguinaldo Roberto, Delatorre, Edson, Bello, Gonzalo
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/29323
Resumo: Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de AIDS e Imunologia Molecular. Rio de Janeiro, RJ. Brasil.
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spelling Mir, DaianaGräf, TiagoAlmeida, Sabrina Esteves de MatosPinto, Aguinaldo RobertoDelatorre, EdsonBello, Gonzalo2018-10-04T12:18:34Z2018-10-04T12:18:34Z2018MIR, Daiana; et al. Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches. Scientific Reports, v.8:8778, 10p, June 2018.2045-2322https://www.arca.fiocruz.br/handle/icict/2932310.1038/s41598-018-26824-4engNature ResearchSubtipo C do HIV-1Abordagens filodinâmicas bayesianasSul do BrasilÁfrica Orientaldinâmicas populacionaisepidemiasHIV-1 subtype CEastern AfricaSouthern BrazilBayesian phylodynamic approachespopulation dynamicsepidemicsInferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approachesinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de AIDS e Imunologia Molecular. Rio de Janeiro, RJ. Brasil.Universidade Federal do Rio de Janeiro, Rio de Janeiro. Instituto de Biologia. Departamento de Genética. Rio de Janeiro, RJ, Brasil / University of KwaZulu-Natal. College of Health Sciences. KwaZulu-Natal Research Innovation and Sequencing Platform. Durban, South Africa.Fundação Estadual de Produção e Pesquisa em Saúde. Centro de Desenvolvimento Científico e Tecnológico. Porto Alegre, RS, Brasil / Universidade Federal do Rio Grande do Sul. Programa de Pós-Graduação em Genética e Biologia Molecular. Porto Alegre, RS, Brasil / Universidade Feevale. Instituto de Ciências da Saúde. Novo Hamburgo, RS, Brasil.Universidade Federal de Santa Catarina. Departamento de Microbiologia, Imunologia e Parasitologia. Laboratório de Imunologia Aplicada. Florianópolis, SC, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de AIDS e Imunologia Molecular. Rio de Janeiro, RJ. Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de AIDS e Imunologia Molecular. Rio de Janeiro, RJ. Brasil.The subtype C Eastern Africa clade (CEA), a particularly successful HIV-1 subtype C lineage, has seeded several sub-epidemics in Eastern African countries and Southern Brazil during the 1960s and 1970s. Here, we characterized the past population dynamics of the major CEA sub-epidemics in Eastern Africa and Brazil by using Bayesian phylodynamic approaches based on coalescent and birth-death models. All phylodynamic models support similar epidemic dynamics and exponential growth rates until roughly the mid-1980s for all the CEA sub-epidemics. Divergent growth patterns, however, were supported afterwards. The Bayesian skygrid coalescent model (BSKG) and the birth-death skyline model (BDSKY) supported longer exponential growth phases than the Bayesian skyline coalescent model (BSKL). The BDSKY model uncovers patterns of a recent decline for the CEA sub-epidemics in Burundi/Rwanda and Tanzania (Re < 1) and a recent growth for Southern Brazil (Re > 1); whereas coalescent models infer an epidemic stabilization. To the contrary, the BSKG model captured a decline of Ethiopian CEA sub-epidemic between the mid-1990s and mid-2000s that was not uncovered by the BDSKY model. These results underscore that the joint use of different phylodynamic approaches may yield complementary insights into the past HIV population dynamics.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/29323/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALedsondelatorre_gonzalobello_etal_IOC_2018.pdfedsondelatorre_gonzalobello_etal_IOC_2018.pdfapplication/pdf2469298https://www.arca.fiocruz.br/bitstream/icict/29323/2/edsondelatorre_gonzalobello_etal_IOC_2018.pdf698241db98456db2f54313282ec989adMD52TEXTedsondelatorre_gonzalobello_etal_IOC_2018.pdf.txtedsondelatorre_gonzalobello_etal_IOC_2018.pdf.txtExtracted texttext/plain51988https://www.arca.fiocruz.br/bitstream/icict/29323/3/edsondelatorre_gonzalobello_etal_IOC_2018.pdf.txtf85c2afea4ed05618df1b675a554f3c0MD53icict/293232018-10-05 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dc.title.pt_BR.fl_str_mv Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
title Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
spellingShingle Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
Mir, Daiana
Subtipo C do HIV-1
Abordagens filodinâmicas bayesianas
Sul do Brasil
África Oriental
dinâmicas populacionais
epidemias
HIV-1 subtype C
Eastern Africa
Southern Brazil
Bayesian phylodynamic approaches
population dynamics
epidemics
title_short Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
title_full Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
title_fullStr Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
title_full_unstemmed Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
title_sort Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches
author Mir, Daiana
author_facet Mir, Daiana
Gräf, Tiago
Almeida, Sabrina Esteves de Matos
Pinto, Aguinaldo Roberto
Delatorre, Edson
Bello, Gonzalo
author_role author
author2 Gräf, Tiago
Almeida, Sabrina Esteves de Matos
Pinto, Aguinaldo Roberto
Delatorre, Edson
Bello, Gonzalo
author2_role author
author
author
author
author
dc.contributor.author.fl_str_mv Mir, Daiana
Gräf, Tiago
Almeida, Sabrina Esteves de Matos
Pinto, Aguinaldo Roberto
Delatorre, Edson
Bello, Gonzalo
dc.subject.other.pt_BR.fl_str_mv Subtipo C do HIV-1
Abordagens filodinâmicas bayesianas
Sul do Brasil
África Oriental
dinâmicas populacionais
epidemias
topic Subtipo C do HIV-1
Abordagens filodinâmicas bayesianas
Sul do Brasil
África Oriental
dinâmicas populacionais
epidemias
HIV-1 subtype C
Eastern Africa
Southern Brazil
Bayesian phylodynamic approaches
population dynamics
epidemics
dc.subject.en.pt_BR.fl_str_mv HIV-1 subtype C
Eastern Africa
Southern Brazil
Bayesian phylodynamic approaches
population dynamics
epidemics
description Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de AIDS e Imunologia Molecular. Rio de Janeiro, RJ. Brasil.
publishDate 2018
dc.date.accessioned.fl_str_mv 2018-10-04T12:18:34Z
dc.date.available.fl_str_mv 2018-10-04T12:18:34Z
dc.date.issued.fl_str_mv 2018
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.citation.fl_str_mv MIR, Daiana; et al. Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches. Scientific Reports, v.8:8778, 10p, June 2018.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/29323
dc.identifier.issn.pt_BR.fl_str_mv 2045-2322
dc.identifier.doi.none.fl_str_mv 10.1038/s41598-018-26824-4
identifier_str_mv MIR, Daiana; et al. Inferring population dynamics of HIV-1 subtype C epidemics in Eastern Africa and Southern Brazil applying different Bayesian phylodynamics approaches. Scientific Reports, v.8:8778, 10p, June 2018.
2045-2322
10.1038/s41598-018-26824-4
url https://www.arca.fiocruz.br/handle/icict/29323
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Nature Research
publisher.none.fl_str_mv Nature Research
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
collection Repositório Institucional da FIOCRUZ (ARCA)
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https://www.arca.fiocruz.br/bitstream/icict/29323/2/edsondelatorre_gonzalobello_etal_IOC_2018.pdf
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